Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 289 of 320
Found at i:92641339 original size:98 final size:98
Alignment explanation
Indices: 92641174--92641442 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
92641164 TAAGTGTAGC
* * *
92641174 CACTTATCACTTTGTCCCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
92641239 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
92641273 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
92641338 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
92641371 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
92641436 GATCAGA
66 GATCAGA
92641443 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:92643802 original size:18 final size:19
Alignment explanation
Indices: 92643781--92643816 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
92643771 AAACCTATCT
92643781 ACAATATCATATC-TATAG
1 ACAATATCATATCATATAG
92643799 ACAATATCATATCATATA
1 ACAATATCATATCATATA
92643817 AATACACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (19 bp):
ACAATATCATATCATATAG
Found at i:92649094 original size:25 final size:25
Alignment explanation
Indices: 92649058--92649112 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
92649048 CTTGGGTCTC
* *
92649058 ATTTTATCTTTTTAATTTTA-TTTA
1 ATTTTATCTTTTTAAATTAATTTTA
*
92649082 ATTTTCATTTTTTTAAATTAATTTTA
1 ATTTT-ATCTTTTTAAATTAATTTTA
92649108 ATTTT
1 ATTTT
92649113 TTTTATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 5 0.19
25 12 0.46
26 9 0.35
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (25 bp):
ATTTTATCTTTTTAAATTAATTTTA
Found at i:92651189 original size:17 final size:18
Alignment explanation
Indices: 92651167--92651205 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
92651157 TTTATTTTTT
92651167 TCTTTTTC-ATTTTAATA
1 TCTTTTTCTATTTTAATA
92651184 TC-TTTTCTATTTTAATA
1 TCTTTTTCTATTTTAATA
92651201 -CTTTT
1 TCTTTT
92651206 CATATCCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.67
Consensus pattern (18 bp):
TCTTTTTCTATTTTAATA
Found at i:92651204 original size:16 final size:16
Alignment explanation
Indices: 92651170--92651208 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
92651160 ATTTTTTTCT
92651170 TTTTCATTTTAATATC
1 TTTTCATTTTAATATC
92651186 TTTTCTATTTTAATA-C
1 TTTTC-ATTTTAATATC
92651202 TTTTCAT
1 TTTTCAT
92651209 ATCCATGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.09
16 11 0.50
17 9 0.41
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTCATTTTAATATC
Found at i:92656548 original size:52 final size:51
Alignment explanation
Indices: 92656477--92656835 Score: 477
Period size: 52 Copynumber: 7.1 Consensus size: 51
92656467 ATCAAGTGAC
* **
92656477 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
92656529 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* **
92656575 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
92656627 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
92656673 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
92656724 AAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
** *
92656776 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
92656829 ATAAGTG
1 A-AAGTG
92656836 GCTACACTTA
Statistics
Matches: 273, Mismatches: 20, Indels: 27
0.85 0.06 0.08
Matches are distributed among these distances:
46 85 0.31
52 178 0.65
53 10 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:92656583 original size:98 final size:98
Alignment explanation
Indices: 92656463--92656824 Score: 598
Period size: 98 Copynumber: 3.6 Consensus size: 98
92656453 TTTGAGTACT
*
92656463 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
92656528 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
92656561 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
92656626 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
92656659 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
92656724 AAAAGTGATAAGTGATAGCTTCGGCTACACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
92656757 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGA
92656822 CAA
60 CAA
92656825 AGTGATAAGT
Statistics
Matches: 249, Mismatches: 9, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
98 204 0.82
104 45 0.18
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:92656752 original size:150 final size:144
Alignment explanation
Indices: 92656469--92656872 Score: 511
Period size: 150 Copynumber: 2.8 Consensus size: 144
92656459 TACTTCTGAT
*
92656469 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
1 CAAGTGA-AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC------AAAGT
* * * *
92656534 GATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGC
59 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGC
92656599 TACACTTATCTGATCAAGTGA
124 TACACTTATCTGATCAAGTGA
* * ** *
92656620 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
92656685 GATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCT
66 GATAGCTTCGGCTACACTTATCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCT
92656750 ACACTTATCTGATCAAGTGA
125 ACACTTATCTGATCAAGTGA
*
92656770 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG---A-T
1 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
92656831 -A-AG--T-GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
66 GATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
92656873 GCTACACTTA
Statistics
Matches: 229, Mismatches: 18, Indels: 28
0.83 0.07 0.10
Matches are distributed among these distances:
135 13 0.06
141 24 0.10
142 1 0.00
144 46 0.20
145 1 0.00
146 1 0.00
147 1 0.00
150 136 0.59
151 6 0.03
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (144 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
GATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTT
ATCTGATCAAGTGA
Found at i:92656843 original size:37 final size:37
Alignment explanation
Indices: 92656799--92656944 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
92656789 GATAGCTTTA
92656799 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
92656836 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
92656873 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
92656910 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
92656945 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:92657952 original size:11 final size:11
Alignment explanation
Indices: 92657938--92657977 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
92657928 TAGCCCATCA
92657938 TTAATTATAAT
1 TTAATTATAAT
92657949 TTAATTATAAT
1 TTAATTATAAT
* *
92657960 TTGATTAGAAT
1 TTAATTATAAT
*
92657971 TCAATTA
1 TTAATTA
92657978 CTAGAGTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (11 bp):
TTAATTATAAT
Found at i:92660625 original size:21 final size:20
Alignment explanation
Indices: 92660582--92660629 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
92660572 CATGTTTTTA
*
92660582 AAATG-ATTTGATTTCTACC
1 AAATGTATTTGATTTATACC
*
92660601 AAATGTATTTGAGTTTATTCC
1 AAATGTATTTGA-TTTATACC
92660622 AAAT-TATT
1 AAATGTATT
92660630 ATAAAGAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.20
20 10 0.40
21 10 0.40
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (20 bp):
AAATGTATTTGATTTATACC
Found at i:92662583 original size:21 final size:21
Alignment explanation
Indices: 92662554--92662603 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
92662544 GATCTTGAAA
*
92662554 TATCCATACTTACCCTAAAAG
1 TATCTATACTTACCCTAAAAG
* * * *
92662575 TATTTATACTTTCCTTAAAGG
1 TATCTATACTTACCCTAAAAG
92662596 TATCTATA
1 TATCTATA
92662604 ATTTCTTGTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (21 bp):
TATCTATACTTACCCTAAAAG
Found at i:92662608 original size:21 final size:21
Alignment explanation
Indices: 92662569--92662608 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
92662559 ATACTTACCC
* *
92662569 TAAAAGTATTTATACTTTCCT
1 TAAAAGTATCTATAATTTCCT
*
92662590 TAAAGGTATCTATAATTTC
1 TAAAAGTATCTATAATTTC
92662609 TTGTTTCTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.45
Consensus pattern (21 bp):
TAAAAGTATCTATAATTTCCT
Found at i:92664231 original size:27 final size:28
Alignment explanation
Indices: 92664191--92664248 Score: 109
Period size: 27 Copynumber: 2.1 Consensus size: 28
92664181 AAAATCAAAT
92664191 TATGAAAAAATTGTACCACCAAATGTAA
1 TATGAAAAAATTGTACCACCAAATGTAA
92664219 TATG-AAAAATTGTACCACCAAATGTAA
1 TATGAAAAAATTGTACCACCAAATGTAA
92664246 TAT
1 TAT
92664249 TAAGGCAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 26 0.87
28 4 0.13
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (28 bp):
TATGAAAAAATTGTACCACCAAATGTAA
Found at i:92664938 original size:12 final size:12
Alignment explanation
Indices: 92664920--92664949 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
92664910 ATATCTTGCC
92664920 CTCCCAGTCCCA
1 CTCCCAGTCCCA
*
92664932 GTCCCAGTCCCA
1 CTCCCAGTCCCA
92664944 CTCCCA
1 CTCCCA
92664950 CTGCTACCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.17, C:0.57, G:0.10, T:0.17
Consensus pattern (12 bp):
CTCCCAGTCCCA
Found at i:92672089 original size:43 final size:45
Alignment explanation
Indices: 92672026--92672120 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 45
92672016 CTGCTTAGAG
** * *
92672026 AGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAA
1 AGATAAGATCTTCAATCTTCAACCTACTCTCTTGCTACCTCAGAA
*
92672071 AGATAAGA-C-TCAATCTTCAACCTACTCTCTTGCTACCTCAGAG
1 AGATAAGATCTTCAATCTTCAACCTACTCTCTTGCTACCTCAGAA
92672114 AGATAAG
1 AGATAAG
92672121 GCCAGTAGCT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
43 36 0.80
44 1 0.02
45 8 0.18
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTACTCTCTTGCTACCTCAGAA
Found at i:92672134 original size:176 final size:175
Alignment explanation
Indices: 92671790--92672362 Score: 751
Period size: 176 Copynumber: 3.3 Consensus size: 175
92671780 TTAAATCTTT
* * * * * *
92671790 TCCATTGCCGATACATGGAGATAAGATTCGCCATCCTCGA--TGCTCCACAACTGCTTAGGGAAA
1 TCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCAATCTGCTCCGCTACTGCTTAGAGAGA
* * **
92671853 T-AGATCTTCAATCTTTAGTCTGCTTCCTTGTTACCTCAGGAAGATAAGACTACAATCGGCAACC
66 TAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CAATCTTCAACC
92671917 TGCTCTCTTGCTACCTTAGAGAGATAAGGCTAGTGGCTAAAATCTGC
130 TGCTCTCTTGCTACCTTAGAGAGATAAGGCTAGT-GCTAAAATCTGC
* * * *
92671964 TCCATTACCAATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCGCTACTGCTTAGAGAGA
1 TCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCAATCTGCTCCGCTACTGCTTAGAGAGA
* *
92672029 TAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCAATCTTCAACCT
66 TAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCT
* * *
92672094 ACTCTCTTGCTACCTCAGAGAGATAAGGCCAGTAGCTAAAATCTGC
131 GCTCTCTTGCTACCTTAGAGAGATAAGGCTAGT-GCTAAAATCTGC
* * *
92672140 TCCATTGCCTG-TACATGGAGAGAAGATTCGCCATTTTCAATATGCTCCGCTACTGCTTA-AGGA
1 TCCATTGCC-GATACATGGAGATAAGATTCGCCATCTTCAATCTGCTCCGCTACTGCTTAGA-GA
* * * * *
92672203 GATAAGATCTTTAATTTTCAGTCTGCTTCCTTGCTTCCTCAGGAAGATAAGACTCATTCTTTAAC
64 GATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAAC
* * * * *
92672268 CTGCTCTCTTACTACGTTAGAGAGATAAGGCTTGGTGGTAAAATTTGC
129 CTGCTCTCTTGCTACCTTAGAGAGATAAGGC-TAGTGCTAAAATCTGC
* *
92672316 TCCATTGCCGATACATGGAGATAAAATTCACCATCTTCAATCTGCTC
1 TCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCAATCTGCTC
92672363 TACTGCAACT
Statistics
Matches: 347, Mismatches: 45, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
174 36 0.10
175 2 0.01
176 261 0.75
177 48 0.14
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (175 bp):
TCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCAATCTGCTCCGCTACTGCTTAGAGAGA
TAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCT
GCTCTCTTGCTACCTTAGAGAGATAAGGCTAGTGCTAAAATCTGC
Found at i:92672478 original size:89 final size:89
Alignment explanation
Indices: 92672316--92672478 Score: 204
Period size: 89 Copynumber: 1.8 Consensus size: 89
92672306 TAAAATTTGC
* * * *
92672316 TCCATTGCCGATACATGGAGATAAAATTCACCATCTTCAATCTGCTCTACTGCAACTTCAGGGAA
1 TCCATTGCCGATACATGGAGATAAAATCCACCATCTTCAATCTACTCCACTGCAACTTCAAGGAA
92672381 ATAAATCTTAAGGCTTAAACCTGT
66 ATAAATCTTAAGGCTTAAACCTGT
* * * * **
92672405 TCCATTGCCGATACATGGAGATAAGATCCACC-TCTTTCGATCTACTCCGCTTC-TGTTCAAGGA
1 TCCATTGCCGATACATGGAGATAAAATCCACCATC-TTCAATCTACTCCACTGCAACTTCAAGGA
92672468 AATAAGATCTT
65 AATAA-ATCTT
92672479 CAATCTTTAG
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
88 14 0.23
89 48 0.77
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (89 bp):
TCCATTGCCGATACATGGAGATAAAATCCACCATCTTCAATCTACTCCACTGCAACTTCAAGGAA
ATAAATCTTAAGGCTTAAACCTGT
Found at i:92672737 original size:437 final size:439
Alignment explanation
Indices: 92671964--92672776 Score: 1149
Period size: 437 Copynumber: 1.9 Consensus size: 439
92671954 TAAAATCTGC
* *
92671964 TCCATTACCAATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCGCTACTGCTTAGAGAGA
1 TCCATTACCAATACATGGAGATAAGACTCGCCATCTTCGATCTACTCCGCTACTGCTTAGAGAAA
* * * *
92672029 TAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCAATCTTCAACCT
66 TAAGATCTTCAATCTTCAGCCTGCTTCCTTACTACCTCAGAAAGATAAGACTCAA--TTCAACCA
* * *
92672094 ACTCTCTTGCTACCTCAGAGAGATAAGGCCAGTAGCTAAAATCTGCTCCATTGCCTGTACATGGA
129 ACTCTCTTACTACCTCAGAGAGATAAGGCCAATAGCTAAAATCTGCTCCATTGCCTGTACATAGA
* * * *
92672159 GAGAAGATTCGCCATTTTCAATATGCTCCGCTACTGCTTAAGGAGATAAGATCTTTAATTTTCAG
194 GAGAAGATTCGCCATTCTCAATATGCTCCGCTACTGCTTAAGGAGATAAGATATTCAATCTTCAG
* * * *
92672224 TCTGCTTCCTTGCTTCCTCAGGAAGATAAGACTCATTCTTTAACCTGCTCTCTTACTACGTTAGA
259 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTACTACCTCAGA
* *
92672289 GAGATAAGGCTTGGTGG-TAAAATTTGCTCCATTGCCGATACATGGAGATAAAATTCACCATCTT
324 GAGACAAGGCTTGG-GGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAAATTCACCATCTT
92672353 CAATCTGCTCTACTGCAACTTCAGGGAAATAAATCTTAAGGCTTAAACCTGT
388 CAATCTGCTCTACTGCAACTTCAGGGAAATAAATCTTAAGGCTTAAACCTGT
* * * *
92672405 TCCATTGCCGATACATGGAGATAAGA-TC-CACCTCTTTCGATCTACTCCGCTTCTG-TTCA-AG
1 TCCATTACCAATACATGGAGATAAGACTCGC-CATC-TTCGATCTACTCCGCTACTGCTT-AGA-
* * *
92672466 GAAATAAGATCTTCAATCTTTAGCCTGCTTCCTTACTACCTTAGGAAGATAAGACTACAA-TC-A
62 GAAATAAGATCTTCAATCTTCAGCCTGCTTCCTTACTACCTCAGAAAGATAAGACT-CAATTCAA
* * *
92672529 CCAACT-TGTTACTACTTCAGAGAGATAAGGTCAATAGCTAAAATCTGCTCCATTGCC-GATACA
126 CCAACTCTCTTACTACCTCAGAGAGATAAGGCCAATAGCTAAAATCTGCTCCATTGCCTG-TACA
* * * *
92672592 TAGAGATAAGATTCGCCATTCTCAATCTGTTCCGCTACTGCTTAGGGAGATAAGATATTCAATCT
190 TAGAGAGAAGATTCGCCATTCTCAATATGCTCCGCTACTGCTTAAGGAGATAAGATATTCAATCT
* **
92672657 TCAGTCTGTTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTGTTACCT
255 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTACTACCT
*
92672722 CAGAGAGACAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAA
320 CAGAGAGACAAGGCTTGGGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAA
92672777 GATTTGCGTG
Statistics
Matches: 328, Mismatches: 37, Indels: 18
0.86 0.10 0.05
Matches are distributed among these distances:
436 3 0.01
437 213 0.65
438 6 0.02
439 3 0.01
440 8 0.02
441 92 0.28
442 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (439 bp):
TCCATTACCAATACATGGAGATAAGACTCGCCATCTTCGATCTACTCCGCTACTGCTTAGAGAAA
TAAGATCTTCAATCTTCAGCCTGCTTCCTTACTACCTCAGAAAGATAAGACTCAATTCAACCAAC
TCTCTTACTACCTCAGAGAGATAAGGCCAATAGCTAAAATCTGCTCCATTGCCTGTACATAGAGA
GAAGATTCGCCATTCTCAATATGCTCCGCTACTGCTTAAGGAGATAAGATATTCAATCTTCAGTC
TGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTACTACCTCAGAGA
GACAAGGCTTGGGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAAATTCACCATCTTCAA
TCTGCTCTACTGCAACTTCAGGGAAATAAATCTTAAGGCTTAAACCTGT
Found at i:92672883 original size:147 final size:147
Alignment explanation
Indices: 92672649--92673032 Score: 662
Period size: 147 Copynumber: 2.6 Consensus size: 147
92672639 AGATAAGATA
* *
92672649 TTCAATCTTCAGTCTGTTTCCTTGCTACCTCAGGAAGATAAGAC-TCATTCTTCAACCTGCTCTC
1 TTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTCAATCTTCAACCTGCTCTC
* *
92672713 TTGTTACCTCAGAGAGACAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAG
66 TTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAG
* * *
92672778 ATTTGCGTGTTCTAATC
131 ATTTGCCTCTTCCAATC
*
92672795 TTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGACAAGACTTCAATCTTCAACCTGCTCTC
1 TTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTCAATCTTCAACCTGCTCTC
92672860 TTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAG
66 TTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAG
92672925 ATTTGCCTCTTCCAATC
131 ATTTGCCTCTTCCAATC
* * *
92672942 TTCAATCTTCAGTCTGCTTCCTTGCTACTTAAGGAAGATAAGACTTCAATCTTCATCCTGCTCTC
1 TTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTCAATCTTCAACCTGCTCTC
92673007 TTGCTACCTCAGAGAGATAAGGCTTG
66 TTGCTACCTCAGAGAGATAAGGCTTG
92673033 TAATCTTTGA
Statistics
Matches: 225, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
146 42 0.19
147 183 0.81
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (147 bp):
TTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTCAATCTTCAACCTGCTCTC
TTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAG
ATTTGCCTCTTCCAATC
Found at i:92674076 original size:379 final size:378
Alignment explanation
Indices: 92673214--92674352 Score: 2181
Period size: 379 Copynumber: 3.0 Consensus size: 378
92673204 ATACTGATGT
**
92673214 CAAATAATTAGGATCCTATTATCGAAATGAATCAAATGCATCTAACTAGATGTGATGAATGATAT
1 CAAATAATTAGGATGTTATTATCGAAATGAATCAAATGCATCTAACTAGATGTGATGAATGATAT
92673279 ATGAATGCAAAAAATGAAAATGATCTTTTTTAAATGATCTTTTCTTTTTTCTTTTTCTTGGTAAA
66 ATGAATGCAAAAAATGAAAATGATCTTTTTTAAATGATCTTTTCTTTTTTCTTTTTCTTGGTAAA
*
92673344 AAATGCTTGAGGCATCATTGCTCGTTGTTCACCAAAGCATTATCACTGATTTATTATGTTGCTGG
131 AAATGCTTGAGGCATCATTGCTCGTTGTTCACCAAAGCATTATCACTGATTTATTATGCTGCTGG
* * *
92673409 CCGGATTCCCCCCTGGCCGGAGCTCCCTCTCTCTTTCCCCTTCTTTCTTCTTTCTCTC-TTTTTT
196 CCGGATTCTCCCCTGGCCGGAGCTCCCTCTCTCTCTCCTCTTCTTTCTTCTTTCTCTCTTTTTTT
92673473 TTCTTTTCTCCTCACCAAATGATTTTTTTGTCAATTTAGGGCCTTATATAGCCCTCCAAAACGAC
261 TTCTTTTCTCCTCACCAAATGATTTTTTTGTCAATTTAGGGCCTTATATAGCCCTCCAAAACGAC
*
92673538 GTCGTTTTGGGGGCTGCCTTTTAACCCCAAACGACGTTGTTTTGAGCATGACC
326 GTCGTTTTGGGGGCTGTCTTTTAACCCCAAACGACGTTGTTTTGAGCATGACC
92673591 CAAATAATTAGGATGTTATTATCGAAATGAATCAAATGCATCTAACTAGATGTGATGAATGATAT
1 CAAATAATTAGGATGTTATTATCGAAATGAATCAAATGCATCTAACTAGATGTGATGAATGATAT
92673656 ATGAATGCAAAAAATGAAAATGATCTTTTTTAAATGATCTTTTCTTTTTTCTTTTTCTTGGTAAA
66 ATGAATGCAAAAAATGAAAATGATCTTTTTTAAATGATCTTTTCTTTTTTCTTTTTCTTGGTAAA
92673721 AAATGCTTGAGGCATCATTGCTCGTTGTTCACCAAAGCATTATCACTGATTTATTATGCTGCTGG
131 AAATGCTTGAGGCATCATTGCTCGTTGTTCACCAAAGCATTATCACTGATTTATTATGCTGCTGG
92673786 CCGGATTCTCCCCTGGCCGGAGCTCCCTCTCTCTCTCCTCTTCTTTCTTCTTTCTCTCTTTTTTT
196 CCGGATTCTCCCCTGGCCGGAGCTCCCTCTCTCTCTCCTCTTCTTTCTTCTTTCTCTC-TTTTTT
92673851 TTTCTTTTCTCCTCACCAAATGATTTTTTTGTCAATTTAGGGCCTTATATAGCCCTCCAAAACGA
260 TTTCTTTTCTCCTCACCAAATGATTTTTTTGTCAATTTAGGGCCTTATATAGCCCTCCAAAACGA
92673916 CGTCGTTTTGGGGGCTGTCTTTTAACCCCAAACGACGTTGTTTTGAGCATGACC
325 CGTCGTTTTGGGGGCTGTCTTTTAACCCCAAACGACGTTGTTTTGAGCATGACC
92673970 CAAATAATTAGGATGTTATTATCGAAATGAATCAAATGCATCTAACTAGATGTGATGAATGATAT
1 CAAATAATTAGGATGTTATTATCGAAATGAATCAAATGCATCTAACTAGATGTGATGAATGATAT
92674035 ATGAATGCAAAAAATGAAAATGATCTTTTTTAAATGATCTTTTCTTTTTTCTTTTTCTTGGTAAA
66 ATGAATGCAAAAAATGAAAATGATCTTTTTTAAATGATCTTTTCTTTTTTCTTTTTCTTGGTAAA
92674100 AAATGCTTGAGGCATCATTGCTCGTTGTTCACCAAAGCATTATCACTGATTTATTATGCTGCTGG
131 AAATGCTTGAGGCATCATTGCTCGTTGTTCACCAAAGCATTATCACTGATTTATTATGCTGCTGG
92674165 CCGGATTCTCCCCTGGCCGGAGCTCCCTCTCTCTCTCCTCTTCTTTCTTCTTTCTCTCTTTTTTT
196 CCGGATTCTCCCCTGGCCGGAGCTCCCTCTCTCTCTCCTCTTCTTTCTTCTTTCTCTCTTTTTTT
*
92674230 TTCTTTTCTCCTCACCAAATGATTTTTTTTGTCAATTTAGGGCCTTATATAGCCCTACAAAACGA
261 TTCTTTTCTCCTCACCAAATGA-TTTTTTTGTCAATTTAGGGCCTTATATAGCCCTCCAAAACGA
92674295 CGTCGTTTTGGGGGCTGTCTTTTAACCCCAAACGACGTTGTTTTGAGCATGACC
325 CGTCGTTTTGGGGGCTGTCTTTTAACCCCAAACGACGTTGTTTTGAGCATGACC
92674349 CAAA
1 CAAA
92674353 CCGTCCGACC
Statistics
Matches: 751, Mismatches: 8, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
377 247 0.33
378 29 0.04
379 475 0.63
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (378 bp):
CAAATAATTAGGATGTTATTATCGAAATGAATCAAATGCATCTAACTAGATGTGATGAATGATAT
ATGAATGCAAAAAATGAAAATGATCTTTTTTAAATGATCTTTTCTTTTTTCTTTTTCTTGGTAAA
AAATGCTTGAGGCATCATTGCTCGTTGTTCACCAAAGCATTATCACTGATTTATTATGCTGCTGG
CCGGATTCTCCCCTGGCCGGAGCTCCCTCTCTCTCTCCTCTTCTTTCTTCTTTCTCTCTTTTTTT
TTCTTTTCTCCTCACCAAATGATTTTTTTGTCAATTTAGGGCCTTATATAGCCCTCCAAAACGAC
GTCGTTTTGGGGGCTGTCTTTTAACCCCAAACGACGTTGTTTTGAGCATGACC
Found at i:92674222 original size:21 final size:20
Alignment explanation
Indices: 92674196--92674242 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
92674186 GCTCCCTCTC
92674196 TCTCTCCTCTTCTTTCTTCTT
1 TCTCTCCTCTT-TTTCTTCTT
*
92674217 TCTCT-CT-TTTTTTTTCTT
1 TCTCTCCTCTTTTTCTTCTT
92674235 T-TCTCCTC
1 TCTCTCCTC
92674243 ACCAAATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 3 0.13
18 11 0.48
19 2 0.09
20 2 0.09
21 5 0.22
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (20 bp):
TCTCTCCTCTTTTTCTTCTT
Found at i:92674790 original size:19 final size:18
Alignment explanation
Indices: 92674763--92674812 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
92674753 TTTCGTGGTG
92674763 TATATTGTAT-TATGTACA
1 TATATTGTATATATGTA-A
*
92674781 TATATGTGTATATATTTAA
1 TATAT-TGTATATATGTAA
92674800 TATATT-TATATAT
1 TATATTGTATATAT
92674813 TTATGAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.24
18 6 0.21
19 11 0.38
20 5 0.17
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.54
Consensus pattern (18 bp):
TATATTGTATATATGTAA
Found at i:92675175 original size:15 final size:14
Alignment explanation
Indices: 92675153--92675198 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
92675143 ATCATTTCTA
92675153 ATGTATATGTATAT
1 ATGTATATGTATAT
*
92675167 ATCGTATATGTTTAT
1 AT-GTATATGTATAT
*
92675182 ATATATTATGTATAT
1 ATGTA-TATGTATAT
92675197 AT
1 AT
92675199 ATTTTCAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 23 0.85
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.52
Consensus pattern (14 bp):
ATGTATATGTATAT
Found at i:92675177 original size:21 final size:21
Alignment explanation
Indices: 92675154--92675196 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
92675144 TCATTTCTAA
*
92675154 TGTATATGTATA-TATCGTATA
1 TGTATATATATATTAT-GTATA
*
92675175 TGTTTATATATATTATGTATA
1 TGTATATATATATTATGTATA
92675196 T
1 T
92675197 ATATTTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (21 bp):
TGTATATATATATTATGTATA
Found at i:92675199 original size:25 final size:23
Alignment explanation
Indices: 92675171--92675235 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 23
92675161 GTATATATCG
92675171 TATATGTTTATATA-TATTATGTATA
1 TATAT-TTTATATACTATTA-GT-TA
*
92675196 TATATTTTCA-ATATTATTAGTTA
1 TATATTTT-ATATACTATTAGTTA
92675219 TAT-TTTTATATACTATT
1 TATATTTTATATACTATT
92675236 CCGTGTACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
21 1 0.03
22 11 0.31
23 5 0.14
24 8 0.22
25 11 0.31
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (23 bp):
TATATTTTATATACTATTAGTTA
Found at i:92684694 original size:29 final size:31
Alignment explanation
Indices: 92684627--92684703 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 31
92684617 TTAATGACTC
*
92684627 AATGACTAAAATGTTACAATACAATAACATA
1 AATGACTAAAATGTAACAATACAATAACATA
* *
92684658 AGTGACTAAAATGTAACAATTC-A-AACATA
1 AATGACTAAAATGTAACAATACAATAACATA
*
92684687 AATGACTAAAATATAAC
1 AATGACTAAAATGTAAC
92684704 TGGAAACAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
29 21 0.51
30 1 0.02
31 19 0.46
ACGTcount: A:0.55, C:0.13, G:0.08, T:0.25
Consensus pattern (31 bp):
AATGACTAAAATGTAACAATACAATAACATA
Found at i:92687771 original size:15 final size:15
Alignment explanation
Indices: 92687736--92687787 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
92687726 TTAAGAATTT
*
92687736 TATTAAATTAT-ATA
1 TATTTAATTATAATA
92687750 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
92687764 TATTTAATAATAAT-
1 TATTTAATTATAATA
92687778 TATGTTAATT
1 TAT-TTAATT
92687788 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:92687818 original size:120 final size:120
Alignment explanation
Indices: 92687674--92687903 Score: 451
Period size: 120 Copynumber: 1.9 Consensus size: 120
92687664 TTTGAGTAAA
92687674 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
92687739 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
*
92687794 TTATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
92687859 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
92687904 TAAATATGAT
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 109 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (120 bp):
TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
Found at i:92687869 original size:61 final size:61
Alignment explanation
Indices: 92687684--92687871 Score: 201
Period size: 61 Copynumber: 3.1 Consensus size: 61
92687674 TTATAGTATC
*
92687684 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * *
92687745 ATATATT-TTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTAT
1 ATATATTATT-ATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AAT
*
92687803 C
61 T
92687804 ATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
92687865 ATATATT
1 ATATATT
92687872 TTAATTATAA
Statistics
Matches: 98, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
58 3 0.03
59 28 0.29
60 29 0.30
61 35 0.36
62 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:92687886 original size:16 final size:16
Alignment explanation
Indices: 92687865--92687906 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
92687855 TTATTAAATT
*
92687865 ATATATTTTAATTATA
1 ATATATTTTAATAATA
92687881 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
92687896 AT-TATGTTTAA
1 ATATAT-TTTAA
92687907 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:92687891 original size:15 final size:15
Alignment explanation
Indices: 92687856--92687897 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
92687846 TTAAGAATTT
*
92687856 TATTAAATTAT-ATA
1 TATTTAATTATAATA
92687870 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
92687884 TATTTAATAATAAT
1 TATTTAATTATAAT
92687898 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:92688132 original size:45 final size:43
Alignment explanation
Indices: 92688032--92688141 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
92688022 TTTTCCATTA
92688032 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
92688071 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
92688116 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
92688142 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:92688143 original size:16 final size:16
Alignment explanation
Indices: 92688122--92688189 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
92688112 GATTTGCTAT
*
92688122 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
92688138 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
92688154 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
92688170 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
92688186 TACA
1 TACA
92688190 ACGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:92690167 original size:16 final size:16
Alignment explanation
Indices: 92690120--92690168 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
92690110 AATTGTGTAT
*
92690120 ATATCATGTTTGAT--
1 ATATCATATTTGATAC
* *
92690134 ATATCAAATATG-TAC
1 ATATCATATTTGATAC
92690149 ATATCATATTTGATAC
1 ATATCATATTTGATAC
92690165 ATAT
1 ATAT
92690169 TTACAACATA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
13 1 0.04
14 9 0.33
15 10 0.37
16 7 0.26
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (16 bp):
ATATCATATTTGATAC
Found at i:92690709 original size:31 final size:31
Alignment explanation
Indices: 92690670--92690741 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
92690660 CTATGAAAAT
*
92690670 TTTC-ATTTTAGTCACAAATGTTTTAAATCA
1 TTTCTATTTTAGTCACAAACGTTTTAAATCA
* ** *
92690700 TTTCTATTTTGGTCACTCACGTTTTAGATCA
1 TTTCTATTTTAGTCACAAACGTTTTAAATCA
92690731 TTTCTATTTTA
1 TTTCTATTTTA
92690742 ACCACTCTCC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
30 4 0.11
31 31 0.89
ACGTcount: A:0.25, C:0.15, G:0.08, T:0.51
Consensus pattern (31 bp):
TTTCTATTTTAGTCACAAACGTTTTAAATCA
Found at i:92690748 original size:31 final size:31
Alignment explanation
Indices: 92690689--92690748 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
92690679 AGTCACAAAT
***
92690689 GTTTTAAATCATTTCTATTTTGGTCACTCAC
1 GTTTTAAATCATTTCTATTTTAACCACTCAC
*
92690720 GTTTTAGATCATTTCTATTTTAACCACTC
1 GTTTTAAATCATTTCTATTTTAACCACTC
92690749 TCCTTATGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.23, C:0.20, G:0.08, T:0.48
Consensus pattern (31 bp):
GTTTTAAATCATTTCTATTTTAACCACTCAC
Found at i:92692969 original size:12 final size:13
Alignment explanation
Indices: 92692954--92693009 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
92692944 AAATATGAGT
92692954 ATAAGT-ATAATG
1 ATAAGTAATAATG
92692966 ATAATAGTAATAATG
1 AT-A-AGTAATAATG
*
92692981 ATAA-TAATAATA
1 ATAAGTAATAATG
* *
92692993 ATAAATAATAATA
1 ATAAGTAATAATG
92693006 ATAA
1 ATAA
92693010 TAAAGTAGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
12 13 0.33
13 14 0.36
14 4 0.10
15 8 0.21
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (13 bp):
ATAAGTAATAATG
Found at i:92692987 original size:3 final size:3
Alignment explanation
Indices: 92692960--92693012 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
92692950 GAGTATAAGT
* * *
92692960 ATA ATG ATA ATA GTA ATA ATG ATA ATA ATA ATA ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
92693006 ATA ATA A
1 ATA ATA A
92693013 AGTAGTAATG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:92693002 original size:16 final size:16
Alignment explanation
Indices: 92692966--92693051 Score: 72
Period size: 16 Copynumber: 5.4 Consensus size: 16
92692956 AAGTATAATG
* *
92692966 ATAATAGTAATAAT-G
1 ATAATAATAATAATAA
92692981 ATAATAATAATAATAA
1 ATAATAATAATAATAA
92692997 ATAATAATAATAATAA
1 ATAATAATAATAATAA
*
92693013 AGTAGTAATGAA-AATAA
1 A-TAATAAT-AATAATAA
*
92693030 GA-AGA-AATGATAATAA
1 -ATA-ATAATAATAATAA
92693046 ATAATA
1 ATAATA
92693052 GTAAGAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
15 16 0.28
16 28 0.48
17 11 0.19
18 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (16 bp):
ATAATAATAATAATAA
Found at i:92698325 original size:2 final size:2
Alignment explanation
Indices: 92698318--92698350 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
92698308 ACAATTGTAG
92698318 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
92698351 GATCTTTCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:92705098 original size:39 final size:40
Alignment explanation
Indices: 92705044--92705136 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 40
92705034 CGTTTGAATG
*
92705044 AAAAACGCCGCTAAAGAAAGAGCATTAGC-GACGC-TTTTT
1 AAAAACGCCGCTAAAGAAAGAGCACTAGCAGA-GCTTTTTT
* ** *
92705083 AAAAACGCTGCTAAAGATCGAGTACTAGCAGAGCTTTTTT
1 AAAAACGCCGCTAAAGAAAGAGCACTAGCAGAGCTTTTTT
*
92705123 AAAAACGCCACTAA
1 AAAAACGCCGCTAA
92705137 TGCTTAATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
39 26 0.58
40 19 0.42
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGAAAGAGCACTAGCAGAGCTTTTTT
Found at i:92705262 original size:39 final size:39
Alignment explanation
Indices: 92705208--92705316 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 39
92705198 TTTAATGGCT
*
92705208 TTAGCGGCGCTTTTTAAAAACGCCGCTAAAGATCA-AGCA
1 TTAGCGGCGTTTTTTAAAAACGCCGCTAAA-ATCACAGCA
* * * * * *
92705247 TTAGCGCCGTTTTTTAAAAAGCGCCGCTATATTTACATCT
1 TTAGCGGCGTTTTTTAAAAA-CGCCGCTAAAATCACAGCA
92705287 TTAGCGGCGTTTTTTAAAAAACGCCGCTAA
1 TTAGCGGCGTTTTTT-AAAAACGCCGCTAA
92705317 TGCTTGACCT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 20 0.34
40 33 0.57
41 5 0.09
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (39 bp):
TTAGCGGCGTTTTTTAAAAACGCCGCTAAAATCACAGCA
Found at i:92705329 original size:40 final size:38
Alignment explanation
Indices: 92705206--92705331 Score: 112
Period size: 40 Copynumber: 3.2 Consensus size: 38
92705196 CCTTTAATGG
* * * *
92705206 CTTTAGCGGCGCTTTTT-AAAAACGCCGCTAAAGATCAAG
1 CTTTAGCGGCGTTTTTTAAAAAACGCCGCTAATG-T-TAC
* * *
92705245 CATTAGCGCCGTTTTTTAAAAAGCGCCGCTATAT-TTAC
1 CTTTAGCGGCGTTTTTTAAAAAACGCCGCTA-ATGTTAC
92705283 ATCTTTAGCGGCGTTTTTTAAAAAACGCCGCTAATGCTTGAC
1 --CTTTAGCGGCGTTTTTTAAAAAACGCCGCTAATG-TT-AC
92705325 CTTTAGC
1 CTTTAGC
92705332 AGCATTTTCA
Statistics
Matches: 70, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
38 1 0.01
39 17 0.24
40 47 0.67
41 3 0.04
42 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (38 bp):
CTTTAGCGGCGTTTTTTAAAAAACGCCGCTAATGTTAC
Found at i:92705459 original size:41 final size:41
Alignment explanation
Indices: 92705402--92705516 Score: 221
Period size: 41 Copynumber: 2.8 Consensus size: 41
92705392 TTTTAGTGGA
92705402 TTTAGCGGCGCTTTTTTAAGAAACGCCGCTATAAGTACACT
1 TTTAGCGGCGCTTTTTTAAGAAACGCCGCTATAAGTACACT
92705443 TTTAGCGGCGCTTTTTTAAGAAACGCCGCTATAAGTACACT
1 TTTAGCGGCGCTTTTTTAAGAAACGCCGCTATAAGTACACT
*
92705484 TTTAGCGGCGCTTTTTTAAAAAACGCCGCTATA
1 TTTAGCGGCGCTTTTTTAAGAAACGCCGCTATA
92705517 GATCTAAACT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (41 bp):
TTTAGCGGCGCTTTTTTAAGAAACGCCGCTATAAGTACACT
Found at i:92706176 original size:22 final size:22
Alignment explanation
Indices: 92706151--92706248 Score: 69
Period size: 22 Copynumber: 4.6 Consensus size: 22
92706141 CACTGGTCCC
*
92706151 TAAATCTCAAATCATAAACCCT
1 TAAATCTCAAACCATAAACCCT
* *
92706173 TAAAACTCTAAACAATAAA-CCT
1 TAAATCTC-AAACCATAAACCCT
* ** *
92706195 T-AATC-CCAACCCCAAGCCC-
1 TAAATCTCAAACCATAAACCCT
*
92706214 TAAATCTCAAACCATATACCCT
1 TAAATCTCAAACCATAAACCCT
* *
92706236 TAAAACTCCAACC
1 TAAATCTCAAACC
92706249 CCGAAACCCC
Statistics
Matches: 55, Mismatches: 16, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
19 6 0.11
20 7 0.13
21 12 0.22
22 22 0.40
23 8 0.15
ACGTcount: A:0.44, C:0.34, G:0.01, T:0.21
Consensus pattern (22 bp):
TAAATCTCAAACCATAAACCCT
Found at i:92706279 original size:14 final size:14
Alignment explanation
Indices: 92706231--92706282 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
92706221 CAAACCATAT
*
92706231 ACCCTTAAAACTCCA
1 ACCCTT-AAACCCCA
**
92706246 ACCCCGAAACCCCA
1 ACCCTTAAACCCCA
92706260 ACCCTTAAACCCCA
1 ACCCTTAAACCCCA
*
92706274 AGCCTTAAA
1 ACCCTTAAA
92706283 ACTAACCTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
14 27 0.87
15 4 0.13
ACGTcount: A:0.38, C:0.44, G:0.04, T:0.13
Consensus pattern (14 bp):
ACCCTTAAACCCCA
Found at i:92707058 original size:9 final size:8
Alignment explanation
Indices: 92707040--92707124 Score: 56
Period size: 8 Copynumber: 10.9 Consensus size: 8
92707030 TATCTTATAT
92707040 AATTTAAA
1 AATTTAAA
92707048 AATTATAAA
1 AATT-TAAA
92707057 AATTTTCAAAA
1 AA-TTT--AAA
*
92707068 AAATT-AA
1 AATTTAAA
92707075 AATTTAAA
1 AATTTAAA
92707083 AA--TAAA
1 AATTTAAA
92707089 AA--TAAA
1 AATTTAAA
92707095 AATTTAAA
1 AATTTAAA
*
92707103 AA-TAAAA
1 AATTTAAA
*
92707110 AACTTAAA
1 AATTTAAA
*
92707118 TATTTAA
1 AATTTAA
92707125 TATTTTAGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
6 12 0.19
7 12 0.19
8 23 0.37
9 7 0.11
10 4 0.06
11 5 0.08
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (8 bp):
AATTTAAA
Found at i:92707091 original size:20 final size:21
Alignment explanation
Indices: 92707065--92707124 Score: 86
Period size: 20 Copynumber: 2.8 Consensus size: 21
92707055 AAAATTTTCA
92707065 AAAAAATTAAAATTTAAAAAT
1 AAAAAATTAAAATTTAAAAAT
*
92707086 -AAAAATAAAAATTTAAAAAT
1 AAAAAATTAAAATTTAAAAAT
92707106 AAAAAACTTAAATATTTAA
1 AAAAAA-TTAAA-ATTTAA
92707125 TATTTTAGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 19 0.56
21 5 0.15
22 4 0.12
23 6 0.18
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAAATTAAAATTTAAAAAT
Found at i:92711585 original size:12 final size:12
Alignment explanation
Indices: 92711568--92711601 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
92711558 AATTTAAATG
92711568 TATTAAATTACA
1 TATTAAATTACA
92711580 TATTAAATTACA
1 TATTAAATTACA
*
92711592 TATTGAATTA
1 TATTAAATTA
92711602 ATGTTTATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (12 bp):
TATTAAATTACA
Found at i:92711653 original size:29 final size:29
Alignment explanation
Indices: 92711579--92711654 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
92711569 ATTAAATTAC
* *
92711579 ATATTAAATTACATATTGAATTAATGTTTAT
1 ATATTAAATTA-AAATT-CATTAATGTTTAT
* * *
92711610 GTATTAAATTTAAATTCATTAATTTTTAT
1 ATATTAAATTAAAATTCATTAATGTTTAT
92711639 AT-TTAAAGTTAAAATT
1 ATATTAAA-TTAAAATT
92711655 TTAATATAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
28 5 0.14
29 19 0.51
30 4 0.11
31 9 0.24
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (29 bp):
ATATTAAATTAAAATTCATTAATGTTTAT
Found at i:92711824 original size:43 final size:43
Alignment explanation
Indices: 92711761--92711948 Score: 218
Period size: 43 Copynumber: 4.3 Consensus size: 43
92711751 TTTTTAATGT
* * *
92711761 ATTGTTCTTTAGTGGCGTTTGTGGAAAAAGTGTCGCTAAAAGTT
1 ATTGTT-TTTAGCGGCGTTTGTGGAAAAAGTGCCGCTAAAAGTC
* * *
92711805 ATTGTTTTTAGCGGTGTTTGTGGCAAAAGTGCTGCTAAAAGTC
1 ATTGTTTTTAGCGGCGTTTGTGGAAAAAGTGCCGCTAAAAGTC
* * *
92711848 ATTGTTTTTAGTGGCGTTTGT-GACAAAAGTGCCACTAAAAGCC
1 ATTGTTTTTAGCGGCGTTTGTGGA-AAAAGTGCCGCTAAAAGTC
* *
92711891 ATGGTTTTTAGCGGCGTTTGTGTG-AAAAGCGCCGCTAAAAGTC
1 ATTGTTTTTAGCGGCGTTTGTG-GAAAAAGTGCCGCTAAAAGTC
* *
92711934 ATGGCTTTTAGCGGC
1 ATTGTTTTTAGCGGC
92711949 ATTTTTTTTT
Statistics
Matches: 123, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.01
43 115 0.93
44 6 0.05
45 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.35
Consensus pattern (43 bp):
ATTGTTTTTAGCGGCGTTTGTGGAAAAAGTGCCGCTAAAAGTC
Found at i:92718305 original size:38 final size:38
Alignment explanation
Indices: 92718254--92718329 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
92718244 TAACCGAAAG
92718254 TACAGTTCCCTATAAGTTATCTGTCTTTTACAAATTAT
1 TACAGTTCCCTATAAGTTATCTGTCTTTTACAAATTAT
92718292 TACAGTTCCCTATAAGTTATCTGTCTTTTACAAATTAT
1 TACAGTTCCCTATAAGTTATCTGTCTTTTACAAATTAT
92718330 ATGAGCACCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (38 bp):
TACAGTTCCCTATAAGTTATCTGTCTTTTACAAATTAT
Found at i:92720603 original size:21 final size:21
Alignment explanation
Indices: 92720566--92720605 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
92720556 TGACAAATGC
*
92720566 TTTTATTAAAATTATTTAAAA
1 TTTTATTAAAATAATTTAAAA
92720587 TTTTAATTAAAA-AATTTAA
1 TTTT-ATTAAAATAATTTAA
92720606 CACCCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTATTAAAATAATTTAAAA
Found at i:92720746 original size:15 final size:16
Alignment explanation
Indices: 92720717--92720751 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
92720707 TTGTATTTTT
92720717 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
92720733 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
92720748 TAAT
1 TAAT
92720752 TTTTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:92720947 original size:21 final size:20
Alignment explanation
Indices: 92720904--92720944 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
92720894 GATCCGAAAA
*
92720904 TAAAAAAATAATATTTTATT
1 TAAAAAAATAATATTATATT
92720924 TAAAAAAAT-ATATATATATT
1 TAAAAAAATAATAT-TATATT
92720944 T
1 T
92720945 TAATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAAAAAATAATATTATATT
Found at i:92725985 original size:14 final size:14
Alignment explanation
Indices: 92725966--92725993 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
92725956 ATGGCAGAGT
92725966 TAGCTTGTCTCAGA
1 TAGCTTGTCTCAGA
92725980 TAGCTTGTCTCAGA
1 TAGCTTGTCTCAGA
92725994 AGCAGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (14 bp):
TAGCTTGTCTCAGA
Found at i:92728825 original size:19 final size:19
Alignment explanation
Indices: 92728801--92728842 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
92728791 CTCCTATTAA
92728801 AAAAGAATAAAAATAACAT
1 AAAAGAATAAAAATAACAT
92728820 AAAAGAATAAAAATAACAT
1 AAAAGAATAAAAATAACAT
92728839 AAAA
1 AAAA
92728843 TCACAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (19 bp):
AAAAGAATAAAAATAACAT
Found at i:92735410 original size:21 final size:22
Alignment explanation
Indices: 92735386--92735430 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
92735376 TATTGGTTAA
92735386 TTTTAAAATATTTT-TTTTTAT
1 TTTTAAAATATTTTATTTTTAT
**
92735407 TTTTTTAATATTTTAATTTTTAT
1 TTTTAAAATATTTT-ATTTTTAT
92735430 T
1 T
92735431 AATATATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
23 8 0.40
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTAAAATATTTTATTTTTAT
Found at i:92735646 original size:19 final size:18
Alignment explanation
Indices: 92735606--92735648 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
92735596 TTTGTGATAC
*
92735606 ATTATATTTTTTAATTAAA
1 ATTA-ATTTTTTAAATAAA
*
92735625 ATTAATTTTTTAAAATAGA
1 ATTAATTTTTT-AAATAAA
92735644 ATTAA
1 ATTAA
92735649 ATTAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATTAATTTTTTAAATAAA
Found at i:92738365 original size:42 final size:39
Alignment explanation
Indices: 92738319--92738417 Score: 92
Period size: 44 Copynumber: 2.4 Consensus size: 39
92738309 GTTATATATG
92738319 TTTTTGTAT-TATGTATATATTTTAAATATTATATACTAAGTA
1 TTTTTGTATCTAT-TAT-TATTTTAAATATTAT-TACTAA-TA
* * *
92738361 TTTTTAATATCCCTATTATTATTTTAAATATTATTAGTTATA
1 TTTTT-GTAT--CTATTATTATTTTAAATATTATTACTAATA
*
92738403 TTTTTGTATATATTA
1 TTTTTGTATCTATTA
92738418 CTCTATGTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
39 5 0.10
41 3 0.06
42 12 0.25
43 7 0.15
44 15 0.31
45 3 0.06
46 3 0.06
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (39 bp):
TTTTTGTATCTATTATTATTTTAAATATTATTACTAATA
Found at i:92738404 original size:21 final size:22
Alignment explanation
Indices: 92738336--92738406 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 22
92738326 ATTATGTATA
* *
92738336 TATTTTAAATATTATATACTAAG
1 TATTTTAAATATTAT-TAGTTAG
* *** *
92738359 TATTTTTAATATCCCTA-TTAT
1 TATTTTAAATATTATTAGTTAG
92738380 TATTTTAAATATTATTAGTTA-
1 TATTTTAAATATTATTAGTTAG
92738401 TATTTT
1 TATTTT
92738407 TGTATATATT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
21 21 0.57
22 5 0.14
23 11 0.30
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (22 bp):
TATTTTAAATATTATTAGTTAG
Found at i:92747147 original size:56 final size:56
Alignment explanation
Indices: 92747061--92747191 Score: 226
Period size: 56 Copynumber: 2.3 Consensus size: 56
92747051 GGAGCAAGGC
*
92747061 AAATTAAAGATACAAGGTAATGAATCTGATATCTCAGCTCATTTTCAGAGAAAACA
1 AAATTAAAGATATAAGGTAATGAATCTGATATCTCAGCTCATTTTCAGAGAAAACA
* * *
92747117 AAATTAAAGATATAAGTTAGTGAATCTGATATCTCAGCTCATTTTTAGAGAAAACA
1 AAATTAAAGATATAAGGTAATGAATCTGATATCTCAGCTCATTTTCAGAGAAAACA
92747173 AAATTAAAGATATAAGGTA
1 AAATTAAAGATATAAGGTA
92747192 GCTCTCTTGT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 70 1.00
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.29
Consensus pattern (56 bp):
AAATTAAAGATATAAGGTAATGAATCTGATATCTCAGCTCATTTTCAGAGAAAACA
Found at i:92757986 original size:22 final size:22
Alignment explanation
Indices: 92757927--92757987 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
92757917 GATTATTAGT
* * *
92757927 ACATTACTGCTTTCCGTTTAGC
1 ACATTAGTGCTTTCTGTATAGC
* *
92757949 ACATTCGTGCTCTCTGTATAGC
1 ACATTAGTGCTTTCTGTATAGC
*
92757971 ACTTTAGTGCTTTCTGT
1 ACATTAGTGCTTTCTGT
92757988 TCAATAGTGC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.43
Consensus pattern (22 bp):
ACATTAGTGCTTTCTGTATAGC
Found at i:92761293 original size:31 final size:31
Alignment explanation
Indices: 92761251--92761314 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
92761241 CCTTTTCATA
*
92761251 TTTCATTTTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
92761282 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
92761313 TT
1 TT
92761315 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:92761591 original size:25 final size:24
Alignment explanation
Indices: 92761523--92761627 Score: 144
Period size: 23 Copynumber: 4.4 Consensus size: 24
92761513 CTGGAGGGCT
* *
92761523 AGCCTCTTTTAATGACTAGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
92761547 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
92761571 AG-CCTTTTATCATAACTGGGGCATA
1 AGCCCTTTTA--ATAACTGGGGCATA
92761596 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
92761619 AGCCCTTTT
1 AGCCCTTTT
92761628 GCACTTCCTC
Statistics
Matches: 74, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
23 42 0.57
24 10 0.14
25 20 0.27
26 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:92761701 original size:20 final size:20
Alignment explanation
Indices: 92761673--92761723 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
92761663 GCATTTATGA
*
92761673 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
92761693 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
92761713 ACATATCATGT
1 ACATATCATGT
92761724 TTATCAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:92763000 original size:27 final size:26
Alignment explanation
Indices: 92762966--92763040 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 26
92762956 CATATTCGTT
92762966 ATTTTACCATACAGGGGTATTACGGTC
1 ATTTTACC-TACAGGGGTATTACGGTC
92762993 ATTTTACCCTACAGGGGCT-TTACGGTC
1 ATTTTA-CCTACAGGGG-TATTACGGTC
* *
92763020 TTTTTACCTATTAGGGGTATT
1 ATTTTACCTA-CAGGGGTATT
92763041 TTAGTCATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
26 5 0.12
27 34 0.81
28 3 0.07
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (26 bp):
ATTTTACCTACAGGGGTATTACGGTC
Found at i:92763184 original size:27 final size:27
Alignment explanation
Indices: 92763144--92763294 Score: 166
Period size: 27 Copynumber: 5.6 Consensus size: 27
92763134 AGAAAGTCAA
**
92763144 GGGTATTTCT-GTAATTTTGTAAA-TCAG
1 GGGTATTT-TGGTAATTTTACAAACT-AG
*
92763171 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
92763197 AGGGTATTTAT-GTAATTTCACAAACTAG
1 -GGGTATTT-TGGTAATTTTACAAACTAG
* * * *
92763225 TGGTATTTCGATAATTTTACAAACTAT
1 GGGTATTTTGGTAATTTTACAAACTAG
92763252 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
92763279 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
92763295 CTATCCTACA
Statistics
Matches: 105, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
26 2 0.02
27 100 0.95
28 3 0.03
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:92763186 original size:56 final size:54
Alignment explanation
Indices: 92763082--92763214 Score: 135
Period size: 56 Copynumber: 2.4 Consensus size: 54
92763072 TAAATCTACA
* * *
92763082 AAAT-AAGGGTATTTCAGTAATTTTGTAAACCAATGATATTTCTATAATTTTTAG
1 AAATCAAGGGTATTTCTGTAATTTTGTAAACCAAGGATATTTCTATAA-TTTTAC
* * * *
92763136 AAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTT-TGGTAATTTTAC
1 AAA-TCAAGGGTATTTCTGTAATTTTGTAAACCAAGGATATTTCT-ATAATTTTAC
** *
92763191 AAATTGAGGGTATTTATGTAATTT
1 AAATCAAGGGTATTTCTGTAATTT
92763215 CACAAACTAG
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
54 21 0.32
55 10 0.15
56 35 0.53
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (54 bp):
AAATCAAGGGTATTTCTGTAATTTTGTAAACCAAGGATATTTCTATAATTTTAC
Found at i:92763310 original size:54 final size:53
Alignment explanation
Indices: 92763169--92763327 Score: 142
Period size: 54 Copynumber: 2.9 Consensus size: 53
92763159 TTTGTAAATC
* * * *
92763169 AGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTATGTAATTTCACAAACT
1 AGGGGTATTTCGATAATTCTACAAACTAG-GGGTATTT-TGTAATTTCACAAACT
* * * *
92763223 AGTGGTATTTCGATAATTTTACAAACTATGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTCGATAATTCTACAAACTAGGGGTATTTT-GTAATTTCACAAACT
* * ** *
92763277 AGGGGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTCGATAATTCTA-CAAACTAGGGGTATTT-TGTAATTTCACAA
92763328 TCGAGGGTAA
Statistics
Matches: 86, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
53 1 0.01
54 81 0.94
55 4 0.05
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.40
Consensus pattern (53 bp):
AGGGGTATTTCGATAATTCTACAAACTAGGGGTATTTTGTAATTTCACAAACT
Found at i:92763311 original size:81 final size:81
Alignment explanation
Indices: 92763171--92763327 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 81
92763161 TGTAAATCAG
* *
92763171 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTATGTAATTTCACAAACTAGTGGTATTTC-G
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTATGTAATTTCACAAACTAGGGGTATTTCAG
*
92763235 ATAATTTTACAAACTAT
66 -TAATTTCACAAACTAT
**
92763252 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTT-TGGTAA-TTCTATCCTAC-AGGGGTATT
1 GGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTAT-GTAATTTC-A-CAAACTAGGGGTATT
92763313 TCAGTAATTTCACAA
62 TCAGTAATTTCACAA
92763328 TCGAGGGTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
80 4 0.06
81 56 0.85
82 6 0.09
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTATGTAATTTCACAAACTAGGGGTATTTCAG
TAATTTCACAAACTAT
Found at i:92763459 original size:27 final size:27
Alignment explanation
Indices: 92763326--92763457 Score: 169
Period size: 27 Copynumber: 4.9 Consensus size: 27
92763316 GTAATTTCAC
* *
92763326 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
92763353 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
92763380 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
92763407 AATCGAGAGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
92763434 AATCGAGGGTAAAACGATAATTCT
1 AATCGAGGGTAAAACGGTAATTCT
92763458 ATCTTACAGG
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
26 1 0.01
27 93 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:92763491 original size:81 final size:80
Alignment explanation
Indices: 92763290--92763494 Score: 177
Period size: 81 Copynumber: 2.5 Consensus size: 80
92763280 GGTATTTTGG
* * * * * *
92763290 TAATTCTATCCTACAGGGGTATTTCAGTAATTTCAC-AATCGAGGGTAAAATGGTAATTTTGTAA
1 TAATTCTATCTTACA-GGGTATTTCAGTAATTTTACAAATCGAGAGTAAAACGGTAATTCTATAA
*
92763354 ACTGAGGGTAAAACGG
65 ACTGAGGGTAAAACGA
* * ** * * **
92763370 TAATT-T-TGTAAACTGAGGGTAAAAT-GGTAATTCTGTAAATCGAGAGTAAAACGGTAATTCTA
1 TAATTCTATCT-TAC--AGGGT-ATTTCAGTAATTTTACAAATCGAGAGTAAAACGGTAATTCTA
92763432 TAAA-TCGAGGGTAAAACGA
62 TAAACT-GAGGGTAAAACGA
92763451 TAATTCTATCTTACAGGAGTATTTCAGTAATTTTACAAATCGAG
1 TAATTCTATCTTACAGG-GTATTTCAGTAATTTTACAAATCGAG
92763495 GGTATTTCAG
Statistics
Matches: 92, Mismatches: 23, Indels: 19
0.69 0.17 0.14
Matches are distributed among these distances:
78 1 0.01
79 3 0.03
80 21 0.23
81 62 0.67
82 3 0.03
83 2 0.02
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (80 bp):
TAATTCTATCTTACAGGGTATTTCAGTAATTTTACAAATCGAGAGTAAAACGGTAATTCTATAAA
CTGAGGGTAAAACGA
Found at i:92763499 original size:27 final size:27
Alignment explanation
Indices: 92763469--92763564 Score: 122
Period size: 27 Copynumber: 3.6 Consensus size: 27
92763459 TCTTACAGGA
92763469 GTATTTCAGTAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* *
92763496 GTATTTCAGTAATTTTATAAATCGGGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* * *
92763523 GTACTTT-GGTAATTTTACAAGTCGAAG
1 GTA-TTTCAGTAATTTTACAAATCGAGG
*
92763550 GTATTTTAGTAATTT
1 GTATTTCAGTAATTT
92763565 GGTAAACTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 3 0.05
27 53 0.90
28 3 0.05
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAATCGAGG
Found at i:92764930 original size:10 final size:10
Alignment explanation
Indices: 92764917--92764974 Score: 62
Period size: 10 Copynumber: 5.4 Consensus size: 10
92764907 TTTTTATTTC
92764917 TATTAAATTA
1 TATTAAATTA
*
92764927 TATTAAAATA
1 TATTAAATTA
92764937 TGATTAAATTA
1 T-ATTAAATTA
*
92764948 TTTATTATAATTT
1 --TATTA-AATTA
92764961 TATTAAATTA
1 TATTAAATTA
92764971 TATT
1 TATT
92764975 TAATAATAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 18 0.45
11 13 0.32
12 4 0.10
13 5 0.12
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (10 bp):
TATTAAATTA
Found at i:92765191 original size:16 final size:16
Alignment explanation
Indices: 92765172--92765208 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
92765162 ATTATAGTTT
92765172 TATTCCATTATAACCC
1 TATTCCATTATAACCC
* *
92765188 TATTCTATTATAGCCC
1 TATTCCATTATAACCC
92765204 TATTC
1 TATTC
92765209 AATTCCAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.03, T:0.43
Consensus pattern (16 bp):
TATTCCATTATAACCC
Found at i:92765420 original size:16 final size:17
Alignment explanation
Indices: 92765388--92765420 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
92765378 AATTTATATT
*
92765388 TTAATTGAATTTTTTTA
1 TTAATTGAATGTTTTTA
92765405 TTAATT-AATGTTTTTA
1 TTAATTGAATGTTTTTA
92765421 ATCGTCAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TTAATTGAATGTTTTTA
Found at i:92766038 original size:26 final size:24
Alignment explanation
Indices: 92765984--92766038 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
92765974 CAAATTAAAA
92765984 TAAAAAATTAAATCCTAATATATT
1 TAAAAAATTAAATCCTAATATATT
* *
92766008 AAAAAAAGTATAACTCCTAA-ATCATT
1 TAAAAAA-T-TAAATCCTAATAT-ATT
92766034 TAAAA
1 TAAAA
92766039 TTTGCTCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 6 0.24
25 3 0.12
26 16 0.64
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (24 bp):
TAAAAAATTAAATCCTAATATATT
Found at i:92770662 original size:13 final size:14
Alignment explanation
Indices: 92770629--92770667 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
92770619 TTTGATATAT
92770629 TATTTAAAATTAAA
1 TATTTAAAATTAAA
* *
92770643 TAATTAAATTTAAA
1 TATTTAAAATTAAA
92770657 T-TTTAAAATTA
1 TATTTAAAATTA
92770668 GATTTAAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TATTTAAAATTAAA
Found at i:92770666 original size:19 final size:20
Alignment explanation
Indices: 92770630--92770675 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
92770620 TTGATATATT
92770630 ATTTAAAATTAAATAATTAA
1 ATTTAAAATTAAATAATTAA
* * *
92770650 ATTTAAATTTTAA-AATTAG
1 ATTTAAAATTAAATAATTAA
92770669 ATTTAAA
1 ATTTAAA
92770676 GAATCATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATTTAAAATTAAATAATTAA
Found at i:92771300 original size:25 final size:23
Alignment explanation
Indices: 92771271--92771334 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 23
92771261 AATAAAAAAT
*
92771271 TTTAAAATATAATAAATCAAATATA
1 TTTAAAACATAA-AAAT-AAATATA
92771296 TTTAAAACATAAAAAT-AA-ATA
1 TTTAAAACATAAAAATAAATATA
*
92771317 -TTAAAAAATAAAAATAAA
1 TTTAAAACATAAAAATAAA
92771335 AAATGAGACT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 14 0.39
21 5 0.14
22 2 0.06
24 4 0.11
25 11 0.31
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (23 bp):
TTTAAAACATAAAAATAAATATA
Found at i:92772192 original size:19 final size:19
Alignment explanation
Indices: 92772165--92772210 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
92772155 AAATATCAAC
* *
92772165 TAAAAATATTTTATATTTT
1 TAAAAATATTTAAAATTTT
*
92772184 TAAATATATTTAAAATTTT
1 TAAAAATATTTAAAATTTT
*
92772203 TAATAATA
1 TAAAAATA
92772211 AAATGTGCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAAAAATATTTAAAATTTT
Found at i:92775344 original size:19 final size:20
Alignment explanation
Indices: 92775320--92775368 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
92775310 TATAAAAAAA
*
92775320 TTTGAATTTTTATAAA-TAT
1 TTTGAATTTTTAAAAATTAT
92775339 TTTGAA-TTTTAAAAATTAT
1 TTTGAATTTTTAAAAATTAT
92775358 TTTGAATTTTT
1 TTTGAATTTTT
92775369 TTTTATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 8 0.30
19 15 0.56
20 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
TTTGAATTTTTAAAAATTAT
Found at i:92777360 original size:15 final size:16
Alignment explanation
Indices: 92777330--92777366 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
92777320 TTTCTGAGCC
92777330 AATTAATTATAATTAT
1 AATTAATTATAATTAT
*
92777346 AATTATTTA-AATTAT
1 AATTAATTATAATTAT
92777361 -ATTAAT
1 AATTAAT
92777367 ATATTTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 5 0.26
15 6 0.32
16 8 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTAATTATAATTAT
Found at i:92777832 original size:13 final size:13
Alignment explanation
Indices: 92777814--92777838 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92777804 CTTCTTCTTC
92777814 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
92777827 TTTTTTTCTTTT
1 TTTTTTTCTTTT
92777839 GCTTTTTACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTTTTCTTTTT
Found at i:92778961 original size:14 final size:14
Alignment explanation
Indices: 92778933--92778974 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
92778923 ACAAATCTTC
92778933 TAAAATAAT-TTAT
1 TAAAATAATATTAT
* *
92778946 TAAGATGATATTAT
1 TAAAATAATATTAT
92778960 TAAAATAATATTAT
1 TAAAATAATATTAT
92778974 T
1 T
92778975 TTTAAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 7 0.29
14 17 0.71
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (14 bp):
TAAAATAATATTAT
Found at i:92782606 original size:14 final size:14
Alignment explanation
Indices: 92782587--92782613 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
92782577 TGGTCACCAG
92782587 TTTACGGATTTAGT
1 TTTACGGATTTAGT
92782601 TTTACGGATTTAG
1 TTTACGGATTTAG
92782614 GATTTTGAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.48
Consensus pattern (14 bp):
TTTACGGATTTAGT
Found at i:92784679 original size:20 final size:20
Alignment explanation
Indices: 92784654--92784691 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
92784644 TGATGGGGAG
92784654 CAAGAATATC-AAGTTGGATT
1 CAAGAA-ATCGAAGTTGGATT
92784674 CAAGAAATCGAAGTTGGA
1 CAAGAAATCGAAGTTGGA
92784692 GGAGAGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.24
Consensus pattern (20 bp):
CAAGAAATCGAAGTTGGATT
Found at i:92786642 original size:46 final size:46
Alignment explanation
Indices: 92786589--92786908 Score: 507
Period size: 46 Copynumber: 7.0 Consensus size: 46
92786579 AGTGTGCTCT
92786589 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
92786635 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
92786681 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
92786727 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
92786773 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
92786819 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
92786865 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
92786909 TCATGTCAAA
Statistics
Matches: 256, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 255 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:92793320 original size:17 final size:17
Alignment explanation
Indices: 92793300--92793354 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
92793290 TTAAATACTT
92793300 ATAATTTTTAAAAATAA
1 ATAATTTTTAAAAATAA
* *
92793317 ATAATTATGAAAAATAA
1 ATAATTTTTAAAAATAA
*
92793334 AAAATGATTTTAAAATATAA
1 ATAAT--TTTTAAAA-ATAA
92793354 A
1 A
92793355 CAAAAATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 19 0.63
19 6 0.20
20 5 0.17
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (17 bp):
ATAATTTTTAAAAATAA
Found at i:92793598 original size:17 final size:17
Alignment explanation
Indices: 92793571--92793604 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
92793561 CGATTCAAAG
92793571 TAAATAAATTATTAAAAA
1 TAAATAAATTA-TAAAAA
92793589 TAAA-AAATTATAAAAA
1 TAAATAAATTATAAAAA
92793605 CCAATTCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 6 0.38
18 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAATAAATTATAAAAA
Found at i:92797791 original size:24 final size:24
Alignment explanation
Indices: 92797764--92797815 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
92797754 TTAGTAAGTC
*
92797764 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
92797788 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
92797812 AAAT
1 AAAT
92797816 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:92799732 original size:24 final size:24
Alignment explanation
Indices: 92799705--92799756 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
92799695 TTAGTAAGTC
*
92799705 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
92799729 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
92799753 AAAT
1 AAAT
92799757 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:92802584 original size:12 final size:12
Alignment explanation
Indices: 92802567--92802592 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
92802557 ATATGCTCAA
92802567 TTTTTTGTTTTT
1 TTTTTTGTTTTT
92802579 TTTTTTGTTTTT
1 TTTTTTGTTTTT
92802591 TT
1 TT
92802593 CTATATACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:92810356 original size:16 final size:14
Alignment explanation
Indices: 92810330--92810381 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
92810320 TCGTATTGCA
*
92810330 TATTTTTATATTATT
1 TATTTTTATATCA-T
92810345 TATTTTTAATATCAT
1 TATTTTT-ATATCAT
* *
92810360 TATTTTTTTATCAC
1 TATTTTTATATCAT
92810374 TATTTTTA
1 TATTTTTA
92810382 AACTTATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 12 0.38
15 15 0.47
16 5 0.16
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTTTATATCAT
Found at i:92839237 original size:21 final size:18
Alignment explanation
Indices: 92839189--92839244 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 18
92839179 AGTATAAACC
92839189 TATAAAAA-TTTAAAAAT
1 TATAAAAATTTTAAAAAT
92839206 TATAAATAATTGTTAAAAAT
1 TATAAA-AATT-TTAAAAAT
*
92839226 ATATTAAAAATTATAAAAA
1 -TA-TAAAAATTTTAAAAA
92839245 AAAACCCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 6 0.18
18 2 0.06
19 1 0.03
20 14 0.42
21 6 0.18
22 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
TATAAAAATTTTAAAAAT
Found at i:92842258 original size:12 final size:12
Alignment explanation
Indices: 92842241--92842267 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
92842231 TGTTACTAGT
92842241 TTTTTTTTAAAG
1 TTTTTTTTAAAG
92842253 TTTTTTTTAAAG
1 TTTTTTTTAAAG
92842265 TTT
1 TTT
92842268 AAAAATCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (12 bp):
TTTTTTTTAAAG
Found at i:92842808 original size:29 final size:30
Alignment explanation
Indices: 92842743--92842811 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
92842733 ATTTATTTGT
*
92842743 GGGTTAAAATTATATTATAAATTTTTAAAA
1 GGGTTAAAATTAAATTATAAATTTTTAAAA
** *
92842773 GAATTAAAATTAAATTATAAA-TTTTAAAG
1 GGGTTAAAATTAAATTATAAATTTTTAAAA
92842802 GGGTTAAAAT
1 GGGTTAAAAT
92842812 ATACTTTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 15 0.45
30 18 0.55
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (30 bp):
GGGTTAAAATTAAATTATAAATTTTTAAAA
Found at i:92865715 original size:80 final size:79
Alignment explanation
Indices: 92865600--92865755 Score: 222
Period size: 80 Copynumber: 2.0 Consensus size: 79
92865590 AAAGTTTATT
** ** *
92865600 TATTTAAATTGAAAAAAAAAAACCCATAAAATTGATAAATAAAATGGCAAAAAAGTCATTACATA
1 TATTTAAATTGAAAAAAAAAAACAAATAAAATTGATAAATAAAATACCAAAAAAGTCAGTACATA
92865665 AATACAAAGTTGAC
66 AATACAAAGTTGAC
* * *
92865679 TATTTAAATTGAAAAAAAAATAACAAATTAAATTGATTAATAAAATACCAAAAAATTCAGTACAT
1 TATTTAAATTGAAAAAAAAA-AACAAATAAAATTGATAAATAAAATACCAAAAAAGTCAGTACAT
*
92865744 AAATACTAAGTT
65 AAATACAAAGTT
92865756 ATTTATATTA
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 20 0.30
80 47 0.70
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.27
Consensus pattern (79 bp):
TATTTAAATTGAAAAAAAAAAACAAATAAAATTGATAAATAAAATACCAAAAAAGTCAGTACATA
AATACAAAGTTGAC
Found at i:92865977 original size:33 final size:33
Alignment explanation
Indices: 92865934--92866031 Score: 133
Period size: 33 Copynumber: 3.0 Consensus size: 33
92865924 CGATGAACTT
*
92865934 AAGCCAGGAGGAGTGGAGTACGGCGGTGGATAC
1 AAGCCGGGAGGAGTGGAGTACGGCGGTGGATAC
*
92865967 AAGCCGGGAGGAGTGGAGTATGGCGGTGGATAC
1 AAGCCGGGAGGAGTGGAGTACGGCGGTGGATAC
** * * *
92866000 GGGCCGAGAGGAGTAGAGTACAGCGGTGGATA
1 AAGCCGGGAGGAGTGGAGTACGGCGGTGGATA
92866032 TGGGTCAGAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.27, C:0.13, G:0.47, T:0.13
Consensus pattern (33 bp):
AAGCCGGGAGGAGTGGAGTACGGCGGTGGATAC
Found at i:92867670 original size:40 final size:42
Alignment explanation
Indices: 92867606--92867696 Score: 125
Period size: 40 Copynumber: 2.2 Consensus size: 42
92867596 AAAAAAGTAT
* * *
92867606 TTATA-TAAAAAAACACTACCATAAATATAATAAATATTTTA
1 TTATATTAAAAAAACACTACAATAAATATAACAAATATCTTA
92867647 TTATATTAAAAAAACAC-A-AATAAATATAACAAATATCTTA
1 TTATATTAAAAAAACACTACAATAAATATAACAAATATCTTA
*
92867687 TTGTATTAAA
1 TTATATTAAA
92867697 TCTAATTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
40 28 0.62
41 6 0.13
42 11 0.24
ACGTcount: A:0.56, C:0.09, G:0.01, T:0.34
Consensus pattern (42 bp):
TTATATTAAAAAAACACTACAATAAATATAACAAATATCTTA
Found at i:92882772 original size:10 final size:10
Alignment explanation
Indices: 92882759--92882786 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
92882749 TTTAGGAGAA
92882759 GGAATTGTAT
1 GGAATTGTAT
92882769 GGAATTGTAT
1 GGAATTGTAT
92882779 GGAATTGT
1 GGAATTGT
92882787 GATTCCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (10 bp):
GGAATTGTAT
Found at i:92884207 original size:6 final size:6
Alignment explanation
Indices: 92884196--92884230 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
92884186 TTAATGGCAT
92884196 ATGGGA ATGGGA ATGGGA ATGGGA ATGGG- ATGGGA
1 ATGGGA ATGGGA ATGGGA ATGGGA ATGGGA ATGGGA
92884231 GTGTGAGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.31, C:0.00, G:0.51, T:0.17
Consensus pattern (6 bp):
ATGGGA
Found at i:92889757 original size:22 final size:22
Alignment explanation
Indices: 92889709--92889750 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
92889699 ATAATAATGG
* *
92889709 TATTTTAATTTTAGGATATATA
1 TATTTTAATTTTAAGATAAATA
*
92889731 TATTTTATTTTTAAGATAAA
1 TATTTTAATTTTAAGATAAA
92889751 ATTATTTGCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (22 bp):
TATTTTAATTTTAAGATAAATA
Found at i:92893581 original size:8 final size:8
Alignment explanation
Indices: 92893568--92893596 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
92893558 TCAATCTAAT
92893568 TTAAATAA
1 TTAAATAA
92893576 TTAAATAA
1 TTAAATAA
92893584 TTAAATAA
1 TTAAATAA
92893592 TTAAA
1 TTAAA
92893597 ATATATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TTAAATAA
Found at i:92894302 original size:23 final size:23
Alignment explanation
Indices: 92894274--92894319 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
92894264 ATAAAAATAT
*
92894274 TAAAATAAAA-TTTTAGTCTAATGG
1 TAAATTAAAAGTTTT-G-CTAATGG
92894298 TAAATTAAAAGTTTTGCTAATG
1 TAAATTAAAAGTTTTGCTAATG
92894320 AAATTAGCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 10 0.50
25 4 0.20
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.39
Consensus pattern (23 bp):
TAAATTAAAAGTTTTGCTAATGG
Found at i:92896749 original size:14 final size:14
Alignment explanation
Indices: 92896730--92896776 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
92896720 AAAGAAAGAA
92896730 TAATAGAACATAAT
1 TAATAGAACATAAT
* *
92896744 TAATAGCACAGAA-
1 TAATAGAACATAAT
92896757 TAATAGAACATAAT
1 TAATAGAACATAAT
92896771 TAATAG
1 TAATAG
92896777 CACAAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 11 0.39
14 17 0.61
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.26
Consensus pattern (14 bp):
TAATAGAACATAAT
Found at i:92896762 original size:13 final size:13
Alignment explanation
Indices: 92896722--92896787 Score: 64
Period size: 14 Copynumber: 5.1 Consensus size: 13
92896712 GACAACCAAA
92896722 AGAA-AGAATAAT
1 AGAACAGAATAAT
*
92896734 AGAACATAATTAAT
1 AGAACAGAA-TAAT
*
92896748 AGCACAGAATAAT
1 AGAACAGAATAAT
*
92896761 AGAACATAATTAAT
1 AGAACAGAA-TAAT
*
92896775 AGCACA-AATAAT
1 AGAACAGAATAAT
92896787 A
1 A
92896788 CAATGTCAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
12 9 0.20
13 16 0.36
14 20 0.44
ACGTcount: A:0.59, C:0.09, G:0.11, T:0.21
Consensus pattern (13 bp):
AGAACAGAATAAT
Found at i:92896764 original size:27 final size:27
Alignment explanation
Indices: 92896726--92896787 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
92896716 ACCAAAAGAA
92896726 AGAATAATAGAACATAATTAATAGCAC
1 AGAATAATAGAACATAATTAATAGCAC
92896753 AGAATAATAGAACATAATTAATAGCAC
1 AGAATAATAGAACATAATTAATAGCAC
92896780 A-AATAATA
1 AGAATAATA
92896788 CAATGTCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 7 0.20
27 28 0.80
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.23
Consensus pattern (27 bp):
AGAATAATAGAACATAATTAATAGCAC
Found at i:92897118 original size:18 final size:18
Alignment explanation
Indices: 92897091--92897158 Score: 66
Period size: 18 Copynumber: 3.6 Consensus size: 18
92897081 AAATAGTGAT
*
92897091 AATAACAATAAATTAAAA
1 AATAATAATAAATTAAAA
92897109 AATAATAATAGTACATTAAAA
1 AATAATAATA--A-ATTAAAA
*
92897130 AATAATAGTAAA-TAAAA
1 AATAATAATAAATTAAAA
*
92897147 TAATAAAAATAA
1 -AATAATAATAA
92897159 TAAAAATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 5 0.12
18 19 0.45
19 1 0.02
20 1 0.02
21 16 0.38
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (18 bp):
AATAATAATAAATTAAAA
Found at i:92897152 original size:39 final size:39
Alignment explanation
Indices: 92897099--92897179 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 39
92897089 ATAATAACAA
* * * *
92897099 TAAATTAAAAAATAATAATAGT-ACATTAAAAAATAATAG
1 TAAATTAAAAAATAAAAATAATAAAAAT-AAAAATAATAG
92897138 TAAA-TAAAATAATAAAAATAATAAAAATAAAAATAATAG
1 TAAATTAAAA-AATAAAAATAATAAAAATAAAAATAATAG
92897177 TAA
1 TAA
92897180 TAATATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
38 5 0.14
39 28 0.78
40 3 0.08
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.26
Consensus pattern (39 bp):
TAAATTAAAAAATAAAAATAATAAAAATAAAAATAATAG
Found at i:92897154 original size:24 final size:24
Alignment explanation
Indices: 92897127--92897185 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
92897117 TAGTACATTA
92897127 AAAAATAATAGTAAAT-AAAATAAT
1 AAAAATAATA-TAAATAAAAATAAT
*
92897151 AAAAATAATAAAAATAAAAATAAT
1 AAAAATAATATAAATAAAAATAAT
**
92897175 AGTAATAATAT
1 AAAAATAATAT
92897186 TAAACTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.25
Consensus pattern (24 bp):
AAAAATAATATAAATAAAAATAAT
Found at i:92897157 original size:9 final size:9
Alignment explanation
Indices: 92897143--92897189 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
92897133 AATAGTAAAT
92897143 AAAATAATA
1 AAAATAATA
92897152 AAAATAATA
1 AAAATAATA
92897161 AAAATAA-A
1 AAAATAATA
*
92897169 AATAATAGTA
1 AA-AATAATA
* *
92897179 ATAATATTA
1 AAAATAATA
92897188 AA
1 AA
92897190 CTTAATTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 3 0.09
9 27 0.84
10 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (9 bp):
AAAATAATA
Found at i:92897181 original size:15 final size:15
Alignment explanation
Indices: 92897079--92897182 Score: 65
Period size: 15 Copynumber: 7.1 Consensus size: 15
92897069 ATAGTATGAA
* *
92897079 AAAAATAGTGATAAT
1 AAAAATAATAATAAT
* * *
92897094 AACAATAA-ATTAAA
1 AAAAATAATAATAAT
*
92897108 AAATAATAATAGTACAT
1 AAA-AATAATAATA-AT
* *
92897125 TAAAA-AATAATAGT
1 AAAAATAATAATAAT
92897139 --AAATAA-AATAAT
1 AAAAATAATAATAAT
*
92897151 AAAAATAATAAAAAT
1 AAAAATAATAATAAT
*
92897166 AAAAATAATAGTAAT
1 AAAAATAATAATAAT
92897181 AA
1 AA
92897183 TATTAAACTT
Statistics
Matches: 67, Mismatches: 15, Indels: 14
0.70 0.16 0.15
Matches are distributed among these distances:
12 8 0.12
13 2 0.03
14 12 0.18
15 37 0.55
16 5 0.07
17 3 0.04
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (15 bp):
AAAAATAATAATAAT
Found at i:92897189 original size:21 final size:20
Alignment explanation
Indices: 92897089--92897189 Score: 82
Period size: 21 Copynumber: 5.0 Consensus size: 20
92897079 AAAAATAGTG
*
92897089 ATAATAACAATAAATTAAAAA
1 ATAATAATAATAAATT-AAAA
* *
92897110 ATAATAATAGTACATTAAAAA
1 ATAATAATAATAAATT-AAAA
* *
92897131 ATAATAGTAAATAAAATAATAA
1 ATAATAAT-AATAAATTAA-AA
92897153 A-AATAATAA-AAA-TAAAA
1 ATAATAATAATAAATTAAAA
*
92897170 ATAATAGTAATAATATTAAA
1 ATAATAATAATAA-ATTAAA
92897190 CTTAATTAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
17 3 0.05
18 10 0.15
19 5 0.08
20 3 0.05
21 36 0.55
22 8 0.12
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (20 bp):
ATAATAATAATAAATTAAAA
Found at i:92897870 original size:17 final size:16
Alignment explanation
Indices: 92897851--92897881 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92897841 AAACAGGAAA
*
92897851 AAAATAAAAAAAAACC
1 AAAAGAAAAAAAAACC
92897867 AAAAGAAAAAAAAAC
1 AAAAGAAAAAAAAAC
92897882 ACCTTTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.84, C:0.10, G:0.03, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAAAACC
Found at i:92898608 original size:88 final size:88
Alignment explanation
Indices: 92898454--92898784 Score: 430
Period size: 88 Copynumber: 3.8 Consensus size: 88
92898444 ACTCGTTTCA
* * *
92898454 ATCTGCTCCACTACTGCTTAGGGAGATAAAATCCGTAATTTTCTA-CCTGTTACTCTACTGCTTA
1 ATCTACTCCACTACTGCTTAGGGAGATAAAATCTGTAATTTT-TAGCCTGTTACCCTACTGCTTA
*
92898518 GGGGGTTAAGGCTCACTGTCTTTG
65 GGGGGTTAAGGCTCACTGTCTTCG
* ** * **
92898542 ATCTACTCCACTACTGTTTAAAGAGATAAAATCTGTAATTTTTAGCCTATTTTCCTACTGCTTAG
1 ATCTACTCCACTACTGCTTAGGGAGATAAAATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAG
* *
92898607 GGGGTTAAGGCTCACAGTCTTCA
66 GGGGTTAAGGCTCACTGTCTTCG
* * * * * *
92898630 ATCTGCTCCGCTACTGCTTAGGGAGACAAGATTTGTAATTTCTAGCCTGTTACCCTACTGCTTAG
1 ATCTACTCCACTACTGCTTAGGGAGATAAAATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAG
* *
92898695 AGGGTTAAGGTTCACTGTCTTCG
66 GGGGTTAAGGCTCACTGTCTTCG
* * * *
92898718 ATCTACTCCACTGCTGTTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAG
1 ATCTACTCCACTACTGCTTAGGGAGATAAAATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAG
92898783 GG
66 GG
92898785 AGATAAGATC
Statistics
Matches: 205, Mismatches: 37, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
87 2 0.01
88 203 0.99
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (88 bp):
ATCTACTCCACTACTGCTTAGGGAGATAAAATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAG
GGGGTTAAGGCTCACTGTCTTCG
Found at i:92898688 original size:44 final size:44
Alignment explanation
Indices: 92898640--92899002 Score: 184
Period size: 44 Copynumber: 8.3 Consensus size: 44
92898630 ATCTGCTCCG
*
92898640 CTACTGCTTAGGGAGACAAGATTTGTAA-TTTCTAGCCTGTTACC
1 CTACTGCTTAGGGAGATAAGATTTGTAATTTTC-AGCCTGTTACC
* * * * * **
92898684 CTACTGCTTAGAGG-GTTAAG-GTT-CACTGTCTTC-GATCTACT-CC
1 CTACTGCTTAG-GGAGATAAGATTTGTAAT-T-TTCAG-CCTGTTACC
* * *
92898727 ACTGCTGTTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGCCTGTTACC
92898772 CTACTGCTTAGGGAGATAAGATCTT-TAATTTTCAGCCTGTTACC
1 CTACTGCTTAGGGAGATAAGAT-TTGTAATTTTCAGCCTGTTACC
* * * * ** *
92898816 CTACTGCTTAGGGGGTATAGGAACTCG----TTTCAATCTGCT-CC
1 CTACTGCTTAGGGAG-ATAAG-ATTTGTAATTTTCAGCCTGTTACC
* * *
92898857 ACTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCTTGTTACC
1 -CTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGCCTGTTACC
* * ** * * * *
92898902 CTACTGCTTAGATG-GTTAAG-GCT-CACTGTCTTC-GATCTGCT-CC
1 CTACTGCTTAG-GGAGATAAGATTTGTAAT-T-TTCAG-CCTGTTACC
* * *
92898945 GCTACTACTTAAGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGCCTGTTACC
92898990 CTACTGCTTAGGG
1 CTACTGCTTAGGG
92899003 GGTTAAGGCT
Statistics
Matches: 231, Mismatches: 57, Indels: 62
0.66 0.16 0.18
Matches are distributed among these distances:
40 1 0.00
41 6 0.03
42 26 0.11
43 14 0.06
44 154 0.67
45 25 0.11
46 5 0.02
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (44 bp):
CTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGCCTGTTACC
Found at i:92898746 original size:176 final size:176
Alignment explanation
Indices: 92898450--92898784 Score: 501
Period size: 176 Copynumber: 1.9 Consensus size: 176
92898440 AGGAACTCGT
* *
92898450 TTCAATCTGCTCCACTACTGCTTAGGGAGATAAAATCCGTAATTTTCTACCTGTTACTCTACTGC
1 TTCAATCTGCTCCACTACTGCTTAGGGAGACAAAATCCGTAATTTTCTACCTGTTACCCTACTGC
* *
92898515 TTAGGGGGTTAAGGCTCACTGTCTTTGATCTACTCCACTACTGTTTAAAGAGATAAAATCTGTAA
66 TTAGAGGGTTAAGGCTCACTGTCTTCGATCTACTCCACTACTGTTTAAAGAGATAAAATCTGTAA
* **
92898580 TTTTTAGCCTATTTTCCTACTGCTTAGGGGGTTAAGGCTCACAGTC
131 TTTTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGCTCACAGTC
* * **
92898626 TTCAATCTGCTCCGCTACTGCTTAGGGAGACAAGATTTGTAA-TTTCTAGCCTGTTACCCTACTG
1 TTCAATCTGCTCCACTACTGCTTAGGGAGACAAAATCCGTAATTTTCTA-CCTGTTACCCTACTG
* * ** *
92898690 CTTAGAGGGTTAAGGTTCACTGTCTTCGATCTACTCCACTGCTGTTTAGGGAGATAAGATCTGTA
65 CTTAGAGGGTTAAGGCTCACTGTCTTCGATCTACTCCACTACTGTTTAAAGAGATAAAATCTGTA
*
92898755 ATTTTCAGCCTGTTACCCTACTGCTTAGGG
130 ATTTTCAGCCTATTACCCTACTGCTTAGGG
92898785 AGATAAGATC
Statistics
Matches: 141, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
175 6 0.04
176 135 0.96
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (176 bp):
TTCAATCTGCTCCACTACTGCTTAGGGAGACAAAATCCGTAATTTTCTACCTGTTACCCTACTGC
TTAGAGGGTTAAGGCTCACTGTCTTCGATCTACTCCACTACTGTTTAAAGAGATAAAATCTGTAA
TTTTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGCTCACAGTC
Done.